Thanks Val that did the trick. On Mon, May 2, 2016 at 4:40 PM, Obenchain, Valerie < valerie.obench...@roswellpark.org> wrote:
> Hi Vince, > > You need version >=1.13.9 of OrganismDbi. Unfortunately it's failing > check because of the biomart problems so you'll have to get it from svn. > Let me know if you still have problems after updating. > > Val > > > On 05/02/2016 11:53 AM, Vincent Carey wrote: > > biocValid() says all is well ... > > > >> select(Homo.sapiens, keys="1001", keytype="ENTREZID", columns="SYMBOL") > > *Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : * > > > > * object '.testSelectArgs' not found* > > > >> sessionInfo() > > R version 3.3.0 beta (2016-04-01 r70412) > > > > Platform: x86_64-apple-darwin13.4.0 (64-bit) > > > > Running under: OS X 10.10.5 (Yosemite) > > > > > > locale: > > > > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > > > > > attached base packages: > > > > [1] parallel stats4 stats graphics grDevices utils datasets > > > > [8] methods base > > > > > > other attached packages: > > > > [1] Homo.sapiens_1.3.1 > > > > [2] TxDb.Hsapiens.UCSC.hg19.knownGene_3.2.2 > > > > [3] org.Hs.eg.db_3.3.0 > > > > [4] GO.db_3.3.0 > > > > [5] OrganismDbi_1.13.8 > > > > [6] GenomicFeatures_1.23.31 > > > > [7] GenomicRanges_1.23.27 > > > > [8] GenomeInfoDb_1.7.6 > > > > [9] AnnotationDbi_1.33.15 > > > > [10] IRanges_2.5.46 > > > > > > [11] S4Vectors_0.9.52 > > > > [12] Biobase_2.31.3 > > > > [13] BiocGenerics_0.17.5 > > > > [14] BiocInstaller_1.21.6 > > > > > > loaded via a namespace (and not attached): > > > > [1] graph_1.49.1 Rcpp_0.12.4.5 > > > > [3] XVector_0.11.8 zlibbioc_1.17.1 > > > > [5] GenomicAlignments_1.7.21 BiocParallel_1.5.22 > > > > [7] tools_3.3.0 SummarizedExperiment_1.1.27 > > > > [9] DBI_0.4 RBGL_1.47.0 > > > > [11] rtracklayer_1.31.11 bitops_1.0-6 > > > > [13] RCurl_1.95-4.8 biomaRt_2.27.2 > > > > [15] RSQLite_1.0.0 Biostrings_2.39.14 > > > > [17] Rsamtools_1.23.11 XML_3.98-1.4 > > > > [[alternative HTML version deleted]] > > > > _______________________________________________ > > Bioc-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/bioc-devel > > > > > > This email message may contain legally privileged and/or confidential > information. If you are not the intended recipient(s), or the employee or > agent responsible for the delivery of this message to the intended > recipient(s), you are hereby notified that any disclosure, copying, > distribution, or use of this email message is prohibited. If you have > received this message in error, please notify the sender immediately by > e-mail and delete this email message from your computer. Thank you. > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel